Variant report

Variant	rs616080
Chromosome Location	chr10:6466965-6466966
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:6460876..6462689-chr10:6466756..6469527,2	K562	blood:
2	chr10:6461189..6464390-chr10:6464587..6469079,4	K562	blood:

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs4750429	0.82[EUR][1000 genomes]
rs4750432	0.82[EUR][1000 genomes]
rs539103	1.00[EUR][1000 genomes]
rs593608	1.00[EUR][1000 genomes]
rs601512	1.00[EUR][1000 genomes]
rs602419	0.90[EUR][1000 genomes]
rs615256	1.00[EUR][1000 genomes]
rs619761	0.90[EUR][1000 genomes]
rs629244	1.00[EUR][1000 genomes]
rs630196	1.00[EUR][1000 genomes]
rs636819	1.00[EUR][1000 genomes]
rs637297	1.00[EUR][1000 genomes]
rs648072	0.90[EUR][1000 genomes]
rs651486	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs658344	1.00[EUR][1000 genomes]
rs6602704	1.00[EUR][1000 genomes]
rs663532	1.00[YRI][hapmap];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1054044	chr10:6155144-6487217	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv430125	chr10:6322167-6477267	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1053440	chr10:6354798-6669469	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	nsv1053177	chr10:6453307-6473114	Weak transcription Enhancers Strong transcription Bivalent Enhancer Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6452200-6468200	Weak transcription	Primary hematopoietic stem cells	blood
2	chr10:6452600-6478600	Weak transcription	Brain Anterior Caudate	brain
3	chr10:6452600-6481400	Weak transcription	Brain Substantia Nigra	brain
4	chr10:6453200-6469200	Weak transcription	Dnd41	blood
5	chr10:6453200-6470800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr10:6453400-6467800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr10:6453400-6469000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr10:6453600-6467600	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr10:6454000-6472800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
10	chr10:6456200-6496600	Weak transcription	Pancreas	Pancrea
11	chr10:6459800-6469200	Weak transcription	Fetal Muscle Leg	muscle
12	chr10:6459800-6472600	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr10:6460600-6481200	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr10:6460800-6472600	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr10:6461000-6469200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr10:6461200-6468000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr10:6462400-6467000	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr10:6462400-6467800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr10:6462400-6469200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr10:6464200-6467800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr10:6464200-6467800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr10:6464200-6487200	Strong transcription	Fetal Thymus	thymus
23	chr10:6464400-6485800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr10:6464600-6490600	Strong transcription	Primary T cells from cord blood	blood
25	chr10:6464800-6487400	Strong transcription	Thymus	Thymus
26	chr10:6465200-6467800	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr10:6465200-6469200	Weak transcription	Fetal Muscle Trunk	muscle
28	chr10:6465400-6468000	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr10:6465800-6467800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr10:6465800-6481000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr10:6465800-6486600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr10:6465800-6496200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr10:6465800-6496600	Weak transcription	Psoas Muscle	Psoas
34	chr10:6465800-6501400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr10:6466000-6467800	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr10:6466000-6475000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr10:6466000-6486600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr10:6466200-6469800	Weak transcription	Brain Hippocampus Middle	brain
39	chr10:6466400-6487800	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links